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Joint Fragmentomic and Methylation Signatures of cfDNA for Cancer Detection by Billy Lau at London Calling 2024

Billy Lau from Stanford University returned to London Calling 2024 and spoke about “Joint fragmentomic and methylation signatures of cfDNA for cancer detection.” They began by defining liquid biopsies for non-invasive cancer measurement as typically being blood draws used for sequencing and multi-omic analyses. They also explained how epigenetic reprogramming in cancer occurs and how […]
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Rady Children’s Institute: Discoveries in Genomic Methylation

Sergey Batalov from the Rady Children’s Institute for Genomic Medicine in the US presented at London Calling 2024 on “Patterns in genomic methylation determined with long-read sequencing.” Rady Children’s Institute is the only level four NICU in San Diego, Riverside, and Imperial counties. The Rady Children’s Hospital provides care to 256,000 kids/year! However, only 35% […]
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Detecting RNA Modifications with Nanopore Devices and IVT Reference Method

Logan Mulroney from the EMBL-EBI & Center for Genomic Science at the Italian Institute of Technology in Italy presented at London Calling 2024 “A survey of human RNA modifications by direct RNA nanopore sequencing.” Mulroney described RNA modifications as “chemical alterations to canonical nucleotides” and mentioned that they have been implicated in diseases such as […]
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Improving Lentiviral Gene Therapy Vectors through Direct RNA Sequencing

Tonight, I watched the London Calling 2024 session by Kathleen Zeglinski from the Walter and Eliza Hall Institute of Medical Research in Australia. The session title was “Quality Control of Gene Therapy Vectors using Nanopore Direct RNA Sequencing.” Zeglinski explained that lentiviruses are a type of RNA viruses that can integrate into the genome. Lentiviruses […]
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Alternative Splicing and Neurologic Disorders: Long-read CaptureSeq Findings

Sofia Kudasheva from Earlham Institute in the UK spoke at London Calling 2024 about “Long-read CaptureSeq identifies novel RNA isoforms of psychiatric risk genes.” They noted that alternative splicing is “a key regulator of neuronal differentiation,” occurring in 95% of human genes and involved in disorders. The team wanted to better understand the role of […]
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Population Genomics and Gene Expression in Bullhead Benthic Fish Melanoma

Tonight, I watched the London Calling 2024 session by Julie Dragon from the University of Vermont. The title was “Shining Light on a Dark Mystery: melanoma in Bullhead Benthic Fish in Lake Memphremagog.” Dragon stated the problem: melanoma is found consistently in 30% of one species of fish in one lake! The brown bullhead is […]
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Amyloid Pathology and Synaptic Adaptation: Insights from Long-read Transcriptomics

Umran Yaman from the UK Dementia Research Institute at University College London in the UK presented at London Calling 2024 on “Long-read transcriptomics shows synaptic adaptation to amyloid pathology in Alzheimer’s.” Yaman is a Ph.D. candidate and described how the accumulation of amyloid drives microglial activation. They performed long-read sequencing of cDNA from mice. They […]
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Isopod: Detecting Differential Transcript Usage in Long-Read Single-Cell Data

Michael Nakai from the Peter MacCallum Cancer Centre in Australia spoke at London Calling 2024. The session title was “Isopod: detecting differential isoform usage from long-read single-cell data.” Nakai is a Ph.D. candidate and explained why we are interested in isoforms and splicing events. With long-read sequencing, information about splicing and different isoforms can be […]
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Genome Science in High-School Classrooms: Inflammation, Glutamate, and Methylation – Iolani School Study

I had heard about the work from the Iolani School during one of the Nanopore Education Beta group meetings. Tonight, I watched Ethan C. Hill, a bioinformatician with the Iolani School, and Jaymie M. Frith, a 12th-year student, present at London Calling 2024. Their session was titled “Genome science in high-school classrooms: inflammation, glutamate and […]
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Clinically Actionable Findings and Long-Read Sequencing in POG Patients

Janessa Laskin from the BC Cancer Centre and The University of British Columbia in Canada spoke at London Calling 2024 on the “Application and use of long-read sequencing in personalized cancer medicine.” Laskin explained that medical oncologists are motivated to find effective treatments for cancer and identify vulnerabilities. The Personalized OncoGenomics (POG) started in 2012 […]
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